WO2007082881A3 - Hybridization probe assay and array - Google Patents

Hybridization probe assay and array Download PDF

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Publication number
WO2007082881A3
WO2007082881A3 PCT/EP2007/050380 EP2007050380W WO2007082881A3 WO 2007082881 A3 WO2007082881 A3 WO 2007082881A3 EP 2007050380 W EP2007050380 W EP 2007050380W WO 2007082881 A3 WO2007082881 A3 WO 2007082881A3
Authority
WO
WIPO (PCT)
Prior art keywords
probe
spacer
array
hybridization probe
coupling
Prior art date
Application number
PCT/EP2007/050380
Other languages
French (fr)
Other versions
WO2007082881A8 (en
WO2007082881A2 (en
Inventor
Brigitte Desiree Alberte Colau
Gijsbertus Everardus Ma Kleter
Alewijk Dirk Cornelis Jerr Van
Doorn Leendert Jan Van
Original Assignee
Glaxosmithkline Biolog Sa
Delft Diagnostic Lab Bv
Brigitte Desiree Alberte Colau
Gijsbertus Everardus Ma Kleter
Alewijk Dirk Cornelis Jerr Van
Doorn Leendert Jan Van
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by Glaxosmithkline Biolog Sa, Delft Diagnostic Lab Bv, Brigitte Desiree Alberte Colau, Gijsbertus Everardus Ma Kleter, Alewijk Dirk Cornelis Jerr Van, Doorn Leendert Jan Van filed Critical Glaxosmithkline Biolog Sa
Priority to CN2007800097058A priority Critical patent/CN101541974B/en
Priority to EP07703895A priority patent/EP1977012A2/en
Priority to CA002636872A priority patent/CA2636872A1/en
Priority to JP2008549889A priority patent/JP2009523416A/en
Priority to BRPI0707155-8A priority patent/BRPI0707155A2/en
Priority to US12/161,179 priority patent/US20100184022A1/en
Publication of WO2007082881A2 publication Critical patent/WO2007082881A2/en
Publication of WO2007082881A3 publication Critical patent/WO2007082881A3/en
Publication of WO2007082881A8 publication Critical patent/WO2007082881A8/en

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Classifications

    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6813—Hybridisation assays
    • C12Q1/6834—Enzymatic or biochemical coupling of nucleic acids to a solid phase
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q2525/00—Reactions involving modified oligonucleotides, nucleic acids, or nucleotides
    • C12Q2525/10—Modifications characterised by
    • C12Q2525/173—Modifications characterised by incorporating a polynucleotide run, e.g. polyAs, polyTs
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q2525/00—Reactions involving modified oligonucleotides, nucleic acids, or nucleotides
    • C12Q2525/10—Modifications characterised by
    • C12Q2525/197—Modifications characterised by incorporating a spacer/coupling moiety

Abstract

A probe suitable for coupling with a particulate support such as a microbead, the probe comprising: a) a coupling group which permits coupling of the probe to the surface of the particulate support; b) a spacer; and c) a target-specific oligonucleotide probe sequence, wherein the spacer comprises: i) an oligonucleotide spacer of at least 15 nucleotides between the target specific probe sequence and the support coupling group; and optionally ii) a carbon spacer of between 3 and 50 carbon units between the target specific probe sequence and the support coupling group.
PCT/EP2007/050380 2006-01-17 2007-01-16 Hybridization probe assay and array WO2007082881A2 (en)

Priority Applications (6)

Application Number Priority Date Filing Date Title
CN2007800097058A CN101541974B (en) 2006-01-17 2007-01-16 Hybridization probe assay and array
EP07703895A EP1977012A2 (en) 2006-01-17 2007-01-16 Hybridization probe assay and array
CA002636872A CA2636872A1 (en) 2006-01-17 2007-01-16 Hybridization probe assay and array
JP2008549889A JP2009523416A (en) 2006-01-17 2007-01-16 Hybridization probe assays and arrays
BRPI0707155-8A BRPI0707155A2 (en) 2006-01-17 2007-01-16 probe, probe set, spacer, kit, and method for detecting any interaction between a probe and a target nucleic acid
US12/161,179 US20100184022A1 (en) 2006-01-17 2007-01-16 Hybridization Probe Assay and Array

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
GB0600927.8 2006-01-17
GBGB0600927.8A GB0600927D0 (en) 2006-01-17 2006-01-17 Assay and materials therefor

Publications (3)

Publication Number Publication Date
WO2007082881A2 WO2007082881A2 (en) 2007-07-26
WO2007082881A3 true WO2007082881A3 (en) 2007-09-07
WO2007082881A8 WO2007082881A8 (en) 2008-01-03

Family

ID=35998186

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/EP2007/050380 WO2007082881A2 (en) 2006-01-17 2007-01-16 Hybridization probe assay and array

Country Status (10)

Country Link
US (1) US20100184022A1 (en)
EP (1) EP1977012A2 (en)
JP (2) JP2009523416A (en)
KR (1) KR20080094911A (en)
CN (1) CN101541974B (en)
BR (1) BRPI0707155A2 (en)
CA (1) CA2636872A1 (en)
GB (1) GB0600927D0 (en)
RU (1) RU2461626C2 (en)
WO (1) WO2007082881A2 (en)

Families Citing this family (16)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US11237171B2 (en) 2006-02-21 2022-02-01 Trustees Of Tufts College Methods and arrays for target analyte detection and determination of target analyte concentration in solution
US8460878B2 (en) 2006-02-21 2013-06-11 The Trustees Of Tufts College Methods and arrays for detecting cells and cellular components in small defined volumes
ES2556627T3 (en) 2007-08-30 2016-01-19 Trustees Of Tufts College Methods to determine the concentration of an analyte in solution
US20090163366A1 (en) * 2007-12-24 2009-06-25 Helicos Biosciences Corporation Two-primer sequencing for high-throughput expression analysis
GB0820822D0 (en) 2008-11-13 2008-12-24 Inst Catala D Oncologia Novel product and processes
US8415171B2 (en) 2010-03-01 2013-04-09 Quanterix Corporation Methods and systems for extending dynamic range in assays for the detection of molecules or particles
US8236574B2 (en) 2010-03-01 2012-08-07 Quanterix Corporation Ultra-sensitive detection of molecules or particles using beads or other capture objects
ES2544635T3 (en) 2010-03-01 2015-09-02 Quanterix Corporation Methods to extend the dynamic range in assays for the detection of molecules or particles
US9952237B2 (en) 2011-01-28 2018-04-24 Quanterix Corporation Systems, devices, and methods for ultra-sensitive detection of molecules or particles
US20140302532A1 (en) 2011-04-12 2014-10-09 Quanterix Corporation Methods of determining a treatment protocol for and/or a prognosis of a patient's recovery from a brain injury
DE102012107651A1 (en) 2012-08-21 2014-02-27 Astrium Gmbh Method for carrying out a biochemical analysis, in particular in space
US20140235456A1 (en) * 2012-12-17 2014-08-21 Virginia Tech Intellectual Properties, Inc. Methods and Compositions for Identifying Global Microsatellite Instability and for Characterizing Informative Microsatellite Loci
US9932626B2 (en) 2013-01-15 2018-04-03 Quanterix Corporation Detection of DNA or RNA using single molecule arrays and other techniques
US11156611B2 (en) * 2015-09-24 2021-10-26 Abvitro Llc Single cell characterization using affinity-oligonucleotide conjugates and vessel barcoded polynucleotides
US10612075B2 (en) * 2015-12-28 2020-04-07 PathogenDX Inc Microarray based multiplex pathogen analysis and uses thereof
US11542498B2 (en) * 2015-12-28 2023-01-03 Pathogendx, Inc. Microarray based multiplex pathogen analysis and uses thereof

Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP1400601A1 (en) * 2002-09-20 2004-03-24 Bayer Healthcare LLC Method for detection of multiple nucleic acid sequence variations

Family Cites Families (6)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
FR2629458B2 (en) * 1987-07-31 1991-08-09 Ire Celltarg Sa NEW NUCLEIC ACID PROBES SPECIFIC TO DIFFERENT TYPES OF HUMAN PAPILLOMA VIRUS
RU2077593C1 (en) * 1991-12-28 1997-04-20 Научно-исследовательский институт вирусологии им.Д.И.Ивановского РАМН Method of preparing molecular probe for molecular hybridization (variants)
US5808036A (en) * 1993-09-01 1998-09-15 Research Corporation Technologies Inc. Stem-loop oligonucleotides containing parallel and antiparallel binding domains
JP2003535599A (en) * 2000-06-06 2003-12-02 ティーエム バイオサイエンス コーポレイション Nucleic acid capture unit and its use
US20030180776A1 (en) * 2002-02-21 2003-09-25 Ming Wu Detection by sliding template amplification
CN100390297C (en) * 2003-11-27 2008-05-28 刘玉玲 Human papilomavirus HPV gene chip

Patent Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP1400601A1 (en) * 2002-09-20 2004-03-24 Bayer Healthcare LLC Method for detection of multiple nucleic acid sequence variations

Non-Patent Citations (9)

* Cited by examiner, † Cited by third party
Title
DIAZ MARA R ET AL: "High-throughput detection of pathogenic yeasts of the genus trichosporon.", JOURNAL OF CLINICAL MICROBIOLOGY AUG 2004, vol. 42, no. 8, August 2004 (2004-08-01), pages 3696 - 3706, XP002458154, ISSN: 0095-1137 *
GRAVES D J: "Powerful tools for genetic analysis come of age", TRENDS IN BIOTECHNOLOGY, ELSEVIER, AMSTERDAM, NL, vol. 17, no. 3, March 1999 (1999-03-01), pages 127 - 134, XP004157733, ISSN: 0167-7799 *
GUO Z ET AL: "DIRECT FLUORESCENCE ANALYSIS OF GENETIC POLYMORPHISMS BY HYBRIDIZATION WITH OLIGONUCLEOTIDE ARRAYS ON GLASS SUPPORTS", NUCLEIC ACIDS RESEARCH, OXFORD UNIVERSITY PRESS, SURREY, GB, vol. 22, no. 24, 11 December 1994 (1994-12-11), pages 5456 - 5465, XP002006248, ISSN: 0305-1048 *
KALLER M ET AL: "Microarray-based AMASE as a novel approach for mutation detection", MUTATION RESEARCH, AMSTERDAM, NL, vol. 554, no. 1-2, 4 October 2004 (2004-10-04), pages 77 - 88, XP004534965, ISSN: 0027-5107 *
KI JANG-SEU ET AL: "A low-density oligonucleotide array study for parallel detection of harmful algal. species using hybridization of consensus PCR products of LSU rDNA D2 domain", BIOSENSORS & BIOELECTRONICS, vol. 21, no. 9, March 2006 (2006-03-01), pages 1812 - 1821, XP005298101, ISSN: 0956-5663 *
KIM ET AL: "Development and evaluation of a highly sensitive human papillomavirus genotyping DNA chip", GYNECOLOGIC ONCOLOGY, ACADEMIC PRESS, LONDON, GB, vol. 100, no. 1, January 2006 (2006-01-01), pages 38 - 43, XP005207487, ISSN: 0090-8258 *
SCHMITT MARKUS ET AL: "Bead-based multiplex genotyping of human papillomaviruses.", JOURNAL OF CLINICAL MICROBIOLOGY FEB 2006, vol. 44, no. 2, February 2006 (2006-02-01), pages 504 - 512, XP002458156, ISSN: 0095-1137 *
WILSON W J ET AL: "A multiplexed PCR-coupled liquid bead array for the simultaneous detection of four biothreat agents", MOLECULAR AND CELLULAR PROBES, ACADEMIC PRESS, LONDON, GB, vol. 19, no. 2, April 2005 (2005-04-01), pages 137 - 144, XP004725276, ISSN: 0890-8508 *
XU HONGXIA ET AL: "Multiplexed SNP genotyping using the Qbead system: a quantum dot-encoded microsphere-based assay.", NUCLEIC ACIDS RESEARCH 15 APR 2003, vol. 31, no. 8, 15 April 2003 (2003-04-15), pages e43, XP002437373, ISSN: 1362-4962 *

Also Published As

Publication number Publication date
JP2013240342A (en) 2013-12-05
CA2636872A1 (en) 2007-07-26
EP1977012A2 (en) 2008-10-08
RU2008129127A (en) 2010-02-27
KR20080094911A (en) 2008-10-27
WO2007082881A8 (en) 2008-01-03
JP2009523416A (en) 2009-06-25
CN101541974A (en) 2009-09-23
CN101541974B (en) 2013-06-12
GB0600927D0 (en) 2006-02-22
RU2461626C2 (en) 2012-09-20
US20100184022A1 (en) 2010-07-22
BRPI0707155A2 (en) 2011-04-26
WO2007082881A2 (en) 2007-07-26

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